IL_5T6R_136

3D structure

PDB id

5T6R (explore in PDB, NAKB, or RNA 3D Hub)

Description

Nmd3 is a structural mimic of eIF5A, and activates the cpGTPase Lsg1 during 60S ribosome biogenesis: 60S-Nmd3 Complex

Experimental method

ELECTRON MICROSCOPY

Resolution

4.2 Å

Loop

Sequence

GAAAGCA*UUAAGC

Length

13 nucleotides

Bulged bases

None detected

QA status

Unknown status

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

R3DMCS Rfam

IL_5T6R_136 not in the Motif Atlas

Homologous match to IL_5TBW_373

Geometric discrepancy: 0.0922

The information below is about IL_5TBW_373

Detailed Annotation

Minor groove platform related

Broad Annotation

No text annotation

Motif group

IL_10207.3

Basepair signature

cWW-cWW-L-cSW-L-R-L-cWW-R-cWW

Number of instances in this motif group

2

Unit IDs

5T6R|1|B|G|21
5T6R|1|B|A|22
5T6R|1|B|A|23
5T6R|1|B|A|24
5T6R|1|B|G|25
5T6R|1|B|C|26
5T6R|1|B|A|27
*
5T6R|1|B|U|53
5T6R|1|B|U|54
5T6R|1|B|A|55
5T6R|1|B|A|56
5T6R|1|B|G|57
5T6R|1|B|C|58

Current chains

Chain B

5S Ribosomal RNA

Nearby chains

Chain G

60S ribosomal protein L5

Chain M

60S ribosomal protein L11-A